Table 4.
Prediction accuracies for wood quality and growth traits estimated with cross-validation sets built with individuals within full-sib families using pedigree (CV1-A), ridge regression (CV1-RR) or both (CV1-RRA) sources of information with all SNPs ( m = 6,932) and various subpopulations of individuals
| Cross-validation | |||||
|---|---|---|---|---|---|
| Trait† | Subpopulation* | Pedigree (CV1-A) | Markers (CV1-RR) | Markers and pedigree (CV1-RRA) | Relative efficiency markers/pedigree (%) |
| ADEN | BG1 | 0.86 | 0.79 | 0.83 | 92 |
| BG1 → BG2 | −0.02 | 0.06 | 0.22 | – | |
| S1 | 0.83 | 0.75 | 0.80 | 90 | |
| S1 → S2 | 0.72 | 0.66 | 0.71 | 92 | |
| AMFA | BG1 | 0.84 | 0.77 | 0.82 | 92 |
| BG1 → BG2 | 0.03 | 0.03 | 0.03 | – | |
| S1 | 0.79 | 0.71 | 0.77 | 90 | |
| S1 → S2 | 0.70 | 0.61 | 0.67 | 87 | |
| HT17 | BG1 | 0.67 | 0.58 | 0.65 | 87 |
| BG1 → BG2 | 0.02 | −0.10 | −0.08 | – | |
| S1 | 0.76 | 0.68 | 0.74 | 89 | |
| S1 → S2 | 0.40 | 0.34 | 0.40 | 85 | |
| DBH17 | BG1 | 0.60 | 0.52 | 0.58 | 87 |
| BG1 → BG2 | −0.01 | −0.16 | −0.14 | – | |
| S1 | 0.78 | 0.69 | 0.76 | 88 | |
| S1 → S2 | 0.29 | 0.24 | 0.30 | 83 | |
| MSE‡ | 0.026 | 0.024 | 0.021 | – | |
†ADEN: average wood density; AMFA: average microfibril angle; HT17: 17-year height; DBH17: 17-year diameter at breast height.
*BG1: both training and testing sets from breeding group 1; BG1 → BG2: training sets from breeding group 1 and testing sets from breeding group 2; S1: both training and testing sets from site 1; S1 → S2: training sets from site 1 and testing sets from site 2.
‡Mean standard error over cross-validation iterations and subpopulations.